RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8252
(129 letters)
>gnl|CDD|239877 cd04414, NDPk6, Nucleoside diphosphate kinase 6 (NDP kinase 6,
NDPk6, NM23-H6; NME6; Inhibitor of p53-induced
apoptosis-alpha, IPIA-alpha): The nm23-H6 gene encoding
NDPk6 is expressed mainly in mitochondria, but also
found at a lower level in most tissues. NDPk6 has all
nine residues considered crucial for enzyme structure
and activity, and has been found to have NDP kinase
activity. It may play a role in cell growth and cell
cycle progression. The nm23-H6 gene locus has been
implicated in a variety of malignant tumors.
Length = 135
Score = 142 bits (361), Expect = 4e-45
Identities = 60/102 (58%), Positives = 73/102 (71%)
Query: 8 AIQNVILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILAREN 67
A++ +ILSN F IV T + E FY+EHK KFFY+RLV+ M SGPS ILA EN
Sbjct: 20 AVRQLILSNGFTIVRKKELRWTTEDAERFYAEHKGKFFYDRLVSFMTSGPSWALILAHEN 79
Query: 68 AITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
AI WR L+GPTKV+ AR S P SIRG+YG++DTRNA HGS+
Sbjct: 80 AIKTWRALMGPTKVFRARASAPDSIRGLYGLTDTRNATHGSD 121
>gnl|CDD|239880 cd04418, NDPk5, Nucleoside diphosphate kinase homolog 5 (NDP kinase
homolog 5, NDPk5, NM23-H5; Inhibitor of p53-induced
apoptosis-beta, IPIA-beta): In human, mRNA for NDPk5 is
almost exclusively found in testis, especially in the
flagella of spermatids and spermatozoa, in association
with axoneme microtubules, and may play a role in
spermatogenesis by increasing the ability of late-stage
spermatids to eliminate reactive oxygen species. It
belongs to the nm23 Group II genes and appears to differ
from the other human NDPks in that it lacks two
important catalytic site residues, and thus does not
appear to possess NDP kinase activity. NDPk5 confers
protection from cell death by Bax and alters the
cellular levels of several antioxidant enzymes,
including glutathione peroxidase 5 (Gpx5).
Length = 132
Score = 115 bits (291), Expect = 2e-34
Identities = 48/108 (44%), Positives = 68/108 (62%), Gaps = 1/108 (0%)
Query: 3 AIH-EKAIQNVILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEIN 61
A+H + I+++IL + F IV+ ++ +Q FY+EH K F+ LV M SGP
Sbjct: 11 AVHKAEEIEDIILESGFTIVQKRKLQLSPEQCSDFYAEHYGKMFFPHLVAYMSSGPIVAM 70
Query: 62 ILARENAITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
+LAR NAI+ W+ELLGPT A+ +HP S+R +YG D RNA HGS+
Sbjct: 71 VLARHNAISYWKELLGPTNSLKAKETHPDSLRAIYGTDDLRNAVHGSD 118
>gnl|CDD|238335 cd00595, NDPk, Nucleoside diphosphate kinases (NDP kinases, NDPks):
NDP kinases, responsible for the synthesis of nucleoside
triphosphates (NTPs), are involved in numerous
regulatory processes associated with proliferation,
development, and differentiation. They are vital for
DNA/RNA synthesis, cell division, macromolecular
metabolism and growth. The enzymes generate NTPs or
their deoxy derivatives by terminal (gamma)
phosphotransfer from an NTP such as ATP or GTP to any
nucleoside diphosphate (NDP) or its deoxy derivative.
The sequence of NDPk has been highly conserved through
evolution. There is a single histidine residue conserved
in all known NDK isozymes, which is involved in the
catalytic mechanism. The first confirmed metastasis
suppressor gene was the NDP kinase protein encoded by
the nm23 gene. Unicellular organisms generally possess
only one gene encoding NDP kinase, while most
multicellular organisms possess not only an ortholog
that provides most of the NDP kinase enzymatic activity
but also multiple divergent paralogous genes. The human
genome codes for at least nine NDP kinases and can be
classified into two groups, Groups I and II, according
to their genomic architecture and distinct enzymatic
activity. Group I isoforms (A-D) are well-conserved,
catalytically active, and share 58-88% identity between
each other, while Group II are more divergent, with only
NDPk6 shown to be active. NDP kinases exist in two
different quaternary structures; all known eukaryotic
enzymes are hexamers, while some bacterial enzymes are
tetramers, as in Myxococcus. The hexamer can be viewed
as trimer of dimers, while tetramers are dimers of
dimers, with the dimerization interface conserved.
Length = 133
Score = 112 bits (282), Expect = 5e-33
Identities = 44/101 (43%), Positives = 56/101 (55%)
Query: 8 AIQNVILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILAREN 67
I I F IV +T++Q E FY EHK + F+ LV M SGP IL ++N
Sbjct: 19 EIIMRIEDAGFEIVAMKELHLTEEQAEEFYVEHKGRPFFPDLVQFMSSGPVVAMILEKDN 78
Query: 68 AITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGS 108
A+ +WRE+LGPT IAR P S+R +G RNA HGS
Sbjct: 79 AVGEWREMLGPTNPEIARHLAPGSLRADFGTDVLRNAVHGS 119
>gnl|CDD|197791 smart00562, NDK, Enzymes that catalyze nonsubstrate specific
conversions of nucleoside diphosphates to nucleoside
triphosphates. These enzymes play important roles in
bacterial growth, signal transduction and pathogenicity.
Length = 135
Score = 109 bits (276), Expect = 4e-32
Identities = 41/105 (39%), Positives = 56/105 (53%), Gaps = 3/105 (2%)
Query: 13 ILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENAITKW 72
F IV +T++Q E FY+EH+ K F+N LV M SGP +L E+A+ W
Sbjct: 24 FERKGFKIVAMKMLQLTEEQAEEFYAEHEGKPFFNDLVEFMTSGPVVAMVLEGEDAVKTW 83
Query: 73 RELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGSEWLRDYNHE 117
R L+GPT R + P +IRG +G+ RNA HGS+ E
Sbjct: 84 RTLMGPTD---PREAAPGTIRGDFGLDIGRNAVHGSDSPESAERE 125
>gnl|CDD|215503 PLN02931, PLN02931, nucleoside diphosphate kinase family protein.
Length = 177
Score = 104 bits (261), Expect = 2e-29
Identities = 43/101 (42%), Positives = 64/101 (63%)
Query: 9 IQNVILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENA 68
I+ VIL + F IV+ +TT + + + +FY+EH + F+ LV M SGP + +L +ENA
Sbjct: 49 IKEVILESGFSIVKEMTTQLDEDRASLFYAEHSSRSFFPSLVKYMTSGPVLVMVLEKENA 108
Query: 69 ITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
++ WR L+GPT A+ SHP SIR M G+ +N HGS+
Sbjct: 109 VSDWRTLIGPTDARKAKISHPNSIRAMCGLDSEKNCVHGSD 149
>gnl|CDD|201162 pfam00334, NDK, Nucleoside diphosphate kinase.
Length = 135
Score = 102 bits (257), Expect = 3e-29
Identities = 40/100 (40%), Positives = 53/100 (53%), Gaps = 3/100 (3%)
Query: 9 IQNVILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENA 68
I + F IV +T++Q E Y+EHK K F+ LV M SGP +L ENA
Sbjct: 20 IISRFEKKGFKIVALKMLQLTREQAEEHYAEHKGKPFFPGLVEFMTSGPVVAMVLEGENA 79
Query: 69 ITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGS 108
++ REL+G T A P +IRG + +S RNA HGS
Sbjct: 80 VSVVRELMGATNPAEA---APGTIRGDFAVSIGRNAVHGS 116
>gnl|CDD|239879 cd04416, NDPk_TX, NDP kinase domain of thioredoxin
domain-containing proteins (TXNDC3 and TXNDC6): Txl-2
(TXNDC6) and Sptrx-2 (TXNDC3) are fusion proteins of
Group II N-terminal thioredoxin domains followed by one
or three NDP kinase domains, respectively. Sptrx-2,
which has a tissue specific distribution in human
testis, has been considered as a member of the nm23
family (nm23-H8) and exhibits a high homology with sea
urchin IC1 (intermediate chain-1) protein, a component
of the sperm axonemal outer dynein arm complex. Txl-2 is
mainly represented in close association with
microtubules within tissues with cilia and flagella such
as seminiferous epithelium (spermatids) and lung airway
epithelium, suggesting possible role in control of
microtubule stability and maintenance.
Length = 132
Score = 95.0 bits (237), Expect = 2e-26
Identities = 34/82 (41%), Positives = 51/82 (62%)
Query: 28 MTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENAITKWRELLGPTKVYIARFS 87
+T++Q FY EH+++ ++ LV M SGPS I +L++ENA+ +WREL+GPT A+
Sbjct: 38 LTEEQAREFYKEHEEEDYFEDLVEFMTSGPSLILVLSKENAVEEWRELMGPTDPEEAKEE 97
Query: 88 HPYSIRGMYGISDTRNAAHGSE 109
P S+R + NA HGS
Sbjct: 98 KPDSLRAQFARDHLSNAVHGSS 119
>gnl|CDD|239878 cd04415, NDPk7A, Nucleoside diphosphate kinase 7 domain A (NDPk7A):
The nm23-H7 class of nucleoside diphosphate kinase
(NDPk7) consists of an N-terminal DM10 domain and two
functional catalytic NDPk modules, NDPk7A and NDPk7B.
The function of the DM10 domain, which also occurs in
multiple copies in other proteins, is unknown. NDPk7 is
predominantly expressed in testes, although appreciable
amount are also found in liver, heart, brain, ovary,
small intestine and spleen. The nm23-H7 gene is located
in or near the hereditary prostrate cancer
susceptibility locus. Nm23-H7 may be involved in the
development of colon and gastric carcinoma, the latter
possibly in a type-specific manner.
Length = 131
Score = 92.9 bits (231), Expect = 2e-25
Identities = 45/108 (41%), Positives = 65/108 (60%)
Query: 2 AAIHEKAIQNVILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEIN 61
A I +I F I ++ T +++++ + FY+EH+ K FYN LV M SGP
Sbjct: 11 AYSKIGKIIQIIEDAGFTITKAKMTKLSRKEAQDFYAEHQSKPFYNELVQFMTSGPIVAM 70
Query: 62 ILARENAITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
L ++AI++WR+LLGPT +AR P SIR ++G TRNAAHGS+
Sbjct: 71 ELVGDDAISEWRKLLGPTNSSVARSDAPNSIRALFGTDGTRNAAHGSD 118
>gnl|CDD|179085 PRK00668, ndk, mulitfunctional nucleoside diphosphate
kinase/apyrimidinic endonuclease/3'-; Validated.
Length = 134
Score = 82.1 bits (204), Expect = 3e-21
Identities = 34/81 (41%), Positives = 47/81 (58%), Gaps = 3/81 (3%)
Query: 28 MTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENAITKWRELLGPTKVYIARFS 87
++++ E Y+EHK+K F+ LV M SGP + +L ENAI K REL+G T A
Sbjct: 40 LSRELAEGHYAEHKEKPFFGELVEFMTSGPVVVMVLEGENAIAKVRELMGATNPAEAA-- 97
Query: 88 HPYSIRGMYGISDTRNAAHGS 108
P +IRG + +S N HGS
Sbjct: 98 -PGTIRGDFALSIGENVVHGS 117
>gnl|CDD|239876 cd04413, NDPk_I, Nucleoside diphosphate kinase Group I
(NDPk_I)-like: NDP kinase domains are present in a large
family of structurally and functionally conserved
proteins from bacteria to humans that generally catalyze
the transfer of gamma-phosphates of a nucleoside
triphosphate (NTP) donor onto a nucleoside diphosphate
(NDP) acceptor through a phosphohistidine intermediate.
The mammalian nm23/NDP kinase gene family can be divided
into two distinct groups. The group I genes encode
proteins that generally have highly homologous
counterparts in other organisms and possess the classic
enzymatic activity of a kinase. This group includes
vertebrate NDP kinases A-D (Nm23- H1 to -H4), and its
counterparts in bacteria, archea and other eukaryotes.
NDP kinases exist in two different quaternary
structures; all known eukaryotic enzymes are hexamers,
while some bacterial enzymes are tetramers, as in
Myxococcus. They possess the NDP kinase active site
motif (NXXH[G/A]SD) and the nine residues that are most
essential for catalysis.
Length = 130
Score = 81.7 bits (203), Expect = 4e-21
Identities = 33/81 (40%), Positives = 45/81 (55%), Gaps = 3/81 (3%)
Query: 28 MTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENAITKWRELLGPTKVYIARFS 87
+T++ E Y+EHK K F+ LV M SGP +L ENA+ R+L+G T A
Sbjct: 39 LTEELAEEHYAEHKGKPFFPELVEFMTSGPVVAMVLEGENAVKTVRKLMGATNPADAA-- 96
Query: 88 HPYSIRGMYGISDTRNAAHGS 108
P +IRG + +S RN HGS
Sbjct: 97 -PGTIRGDFALSIGRNIVHGS 116
>gnl|CDD|223183 COG0105, Ndk, Nucleoside diphosphate kinase [Nucleotide transport
and metabolism].
Length = 135
Score = 73.7 bits (182), Expect = 6e-18
Identities = 32/90 (35%), Positives = 47/90 (52%), Gaps = 3/90 (3%)
Query: 28 MTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENAITKWRELLGPTKVYIARFS 87
++++ E Y+EHK K F+ LV + SGP +L ENAI+ R+L+G T A
Sbjct: 41 LSRELAENHYAEHKGKPFFGELVEFITSGPVVAMVLEGENAISVVRKLMGATNPANAA-- 98
Query: 88 HPYSIRGMYGISDTRNAAHGSEWLRDYNHE 117
P +IRG + +S N HGS+ E
Sbjct: 99 -PGTIRGDFALSVGENVVHGSDSPESAERE 127
>gnl|CDD|239875 cd04412, NDPk7B, Nucleoside diphosphate kinase 7 domain B (NDPk7B):
The nm23-H7 class of nucleoside diphosphate kinase
(NDPk7) consists of an N-terminal DM10 domain and two
functional catalytic NDPk modules, NDPk7A and NDPk7B.
The function of the DM10 domain, which also occurs in
multiple copies in other proteins, is unknown. NDPk7 is
predominantly expressed in testes, although appreciable
amount are also found in liver, heart, brain, ovary,
small intestine and spleen. The nm23-H7 gene is located
in or near the hereditary prostrate cancer
susceptibility locus. Nm23-H7 may be involved in the
development of colon and gastric carcinoma, the latter
possibly in a type-specific manner.
Length = 134
Score = 70.0 bits (172), Expect = 1e-16
Identities = 30/102 (29%), Positives = 45/102 (44%), Gaps = 1/102 (0%)
Query: 9 IQNVILSNQFHIVESLTTAMTKQQTEIFYSEHKDKF-FYNRLVTQMISGPSEINILAREN 67
I IL F I +T+ E F +K +V ++ SGP +A EN
Sbjct: 20 ILQQILDEGFEITALQMFNLTRANAEEFLEVYKGVVPELPAMVDELTSGPCIALEIAGEN 79
Query: 68 AITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
A+ +RE GP IA+ P ++R YG +NA H ++
Sbjct: 80 AVKTFREFCGPFDPEIAKQLRPNTLRARYGKDKVQNAVHCTD 121
>gnl|CDD|184734 PRK14545, PRK14545, nucleoside diphosphate kinase; Provisional.
Length = 139
Score = 64.5 bits (157), Expect = 2e-14
Identities = 38/105 (36%), Positives = 51/105 (48%), Gaps = 3/105 (2%)
Query: 5 HEKAIQNVILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILA 64
H I ++I + F IV T +T E FY+ H ++ FY LV M GP IL
Sbjct: 19 HIGGILDMITAAGFRIVAMKLTQLTVADAETFYAVHAERPFYGELVEFMSRGPIVAAILE 78
Query: 65 RENAITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
+ENA+ +R L+G T A +IR Y S NA HGS+
Sbjct: 79 KENAVEDFRTLIGATNPADAAEG---TIRKKYAKSIGENAVHGSD 120
>gnl|CDD|184733 PRK14540, PRK14540, nucleoside diphosphate kinase; Provisional.
Length = 134
Score = 62.5 bits (152), Expect = 1e-13
Identities = 34/92 (36%), Positives = 49/92 (53%), Gaps = 3/92 (3%)
Query: 18 FHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENAITKWRELLG 77
F IVE +T++ E +Y EHK K FY RL+ M SG ++ ENAI+ R+++G
Sbjct: 31 FEIVEMKMLKLTREMAEEYYEEHKGKEFYERLINFMTSGRIVAMVIEGENAISTVRKMIG 90
Query: 78 PTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
T A P +IRG +G+ N H S+
Sbjct: 91 KTNPAEA---EPGTIRGDFGLYTPANIIHASD 119
>gnl|CDD|173007 PRK14541, PRK14541, nucleoside diphosphate kinase; Provisional.
Length = 140
Score = 58.8 bits (142), Expect = 5e-12
Identities = 35/102 (34%), Positives = 52/102 (50%), Gaps = 3/102 (2%)
Query: 8 AIQNVILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILAREN 67
A+ + I F +V T +TK+ FY+ H+++ FY LV M SGP IL +EN
Sbjct: 20 AVIDKIERAGFRVVAMKKTRLTKETAGEFYAVHRERPFYGELVEFMSSGPCVPMILEKEN 79
Query: 68 AITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
A+ +R L+G T A ++R +Y S N HGS+
Sbjct: 80 AVADFRTLIGATDPAEAAEG---TVRKLYADSKGENIVHGSD 118
>gnl|CDD|173008 PRK14542, PRK14542, nucleoside diphosphate kinase; Provisional.
Length = 137
Score = 55.8 bits (134), Expect = 5e-11
Identities = 35/110 (31%), Positives = 51/110 (46%), Gaps = 6/110 (5%)
Query: 3 AIHEKAIQNV---ILSNQFHIVESLTTAMTKQQTEIFYSEHKDKFFYNRLVTQMISGPSE 59
+ K + N+ I F I+ ++ + + FY H + FYN L M SGP
Sbjct: 12 GVKNKHVGNILQRIEKEGFKILGLKYLKLSLEDAKQFYKVHSARPFYNDLCNYMSSGPIV 71
Query: 60 INILARENAITKWRELLGPTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
L R+NA+ WRE++G T A +IR +Y S NA HGS+
Sbjct: 72 AAALERDNAVLHWREVIGATDPKEAAAG---TIRALYAESKEANAVHGSD 118
>gnl|CDD|173387 PTZ00093, PTZ00093, nucleoside diphosphate kinase, cytosolic;
Provisional.
Length = 149
Score = 55.1 bits (133), Expect = 1e-10
Identities = 30/89 (33%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 29 TKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENAITKWRELLGPTKVYIARFSH 88
T + E Y EHK K F+ LV + SGP + +N + + R+LLG T S
Sbjct: 42 TPEIAEEHYKEHKGKPFFPGLVKYISSGPVVCMVWEGKNVVKQGRKLLGATN---PLESA 98
Query: 89 PYSIRGMYGISDTRNAAHGSEWLRDYNHE 117
P +IRG + + RN HGS+ + E
Sbjct: 99 PGTIRGDFCVDVGRNVIHGSDSVESAKRE 127
>gnl|CDD|178228 PLN02619, PLN02619, nucleoside-diphosphate kinase.
Length = 238
Score = 36.8 bits (85), Expect = 0.001
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 3/81 (3%)
Query: 29 TKQQTEIFYSEHKDKFFYNRLVTQMISGPSEINILARENAITKWRELLGPTKVYIARFSH 88
+K+ + Y + K++ F+N L + SGP + E I R+L+G T + S
Sbjct: 128 SKEFAQKHYHDLKERPFFNGLCDFLSSGPVVAMVWEGEGVIKYGRKLIGATD---PQKSE 184
Query: 89 PYSIRGMYGISDTRNAAHGSE 109
P +IRG + RN HGS+
Sbjct: 185 PGTIRGDLAVVVGRNIIHGSD 205
>gnl|CDD|173010 PRK14544, PRK14544, nucleoside diphosphate kinase; Provisional.
Length = 183
Score = 35.2 bits (81), Expect = 0.004
Identities = 23/72 (31%), Positives = 30/72 (41%), Gaps = 13/72 (18%)
Query: 48 RLVTQMISGPSEINILARENAITKWRELLGPTKVYIARFSHPYSIRGMYGISD------- 100
LV M SGP +L A+ R+L+GPT + A P +IRG Y I
Sbjct: 95 SLVKYMTSGPIVAMVLKGNRAVEVVRKLVGPTSPHKAP---PGTIRGDYSIDSPDLAAEE 151
Query: 101 ---TRNAAHGSE 109
N H S+
Sbjct: 152 GRVVYNLVHASD 163
>gnl|CDD|216133 pfam00815, Histidinol_dh, Histidinol dehydrogenase.
Length = 413
Score = 30.3 bits (69), Expect = 0.25
Identities = 10/38 (26%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 35 IFYSEHKDKFFYNRLVTQMISGPSEINILARENAITKW 72
I+ + K + + M +GPSE+ ++A E A +
Sbjct: 200 IYVTAAK-RLVSGLVDIDMPAGPSEVLVIADETADPDF 236
>gnl|CDD|236117 PRK07857, PRK07857, hypothetical protein; Provisional.
Length = 106
Score = 27.7 bits (62), Expect = 1.1
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 51 TQMISGPSEINILARENA-ITKWRELLGPTKVYIA 84
+M SG + + +RE I ++RE LGP +A
Sbjct: 61 ARMASGGTRLV-HSREMKVIERYREELGPEGKDLA 94
>gnl|CDD|234261 TIGR03564, F420_MSMEG_4879, F420-dependent oxidoreductase,
MSMEG_4879 family. Coenzyme F420 is produced by
methanogenic archaea, a number of the Actinomycetes
(including Mycobacterium tuberculosis), and rare members
of other lineages. The resulting information-rich
phylogenetic profile identifies candidate F420-dependent
oxidoreductases within the family of luciferase-like
enzymes (pfam00296), where the species range for the
subfamily encompasses many F420-positive genomes without
straying beyond. This family is uncharacterized, and
named for member MSMEG_4879 from Mycobacterium smegmatis
[Unknown function, Enzymes of unknown specificity].
Length = 265
Score = 28.1 bits (63), Expect = 1.2
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 87 SHPYSIRGMYGISDTRNAAHGSEWLR 112
SH + + M+G+ R A E+L
Sbjct: 79 SHRWIVEDMFGLPFDRPARRLREYLT 104
>gnl|CDD|234853 PRK00877, hisD, bifunctional histidinal dehydrogenase/ histidinol
dehydrogenase; Reviewed.
Length = 425
Score = 28.1 bits (64), Expect = 1.4
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 53 MISGPSEINILARENA 68
MI+GPSEI ++A E A
Sbjct: 229 MIAGPSEILVIADETA 244
>gnl|CDD|232808 TIGR00069, hisD, histidinol dehydrogenase. This model describes a
polypeptide sequence catalyzing the final step in
histidine biosynthesis, found sometimes as an
independent protein and sometimes as a part of a
multifunctional protein [Amino acid biosynthesis,
Histidine family].
Length = 393
Score = 27.9 bits (63), Expect = 1.5
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 53 MISGPSEINILARENAITKW 72
M +GPSE+ ++A E A ++
Sbjct: 198 MPAGPSEVLVIADETANPEF 217
>gnl|CDD|212076 cd11507, SLC6sbd_GAT2, Na(+)- and Cl(-)-dependent GABA transporter
2; solute-binding domain. This family includes human
GAT2 (hGAT2) which transports gamma-aminobutyric acid
(GABA). GABA is the main inhibitory neurotransmitter
within the mammalian CNS. hGAT2 is encoded by the
SLC6A13 gene, and is similar to mouse GAT-3, and rat
GAT2. hGAT2 is expressed in brain, kidney, lung, and
testis. hGAT2 is a potential drug target for treatment
of epilepsy. This subgroup belongs to the solute carrier
6 (SLC6) transporter family.
Length = 544
Score = 27.5 bits (61), Expect = 2.0
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 14 LSNQFHIVESLTTAMTKQQTEIFYSEHKDKFF 45
L +QF VESL TAM E+F +++ +
Sbjct: 357 LDSQFVCVESLVTAMVDMYPEVFRKKNRRELL 388
>gnl|CDD|213328 cd04519, RasGAP, Ras GTPase Activating Domain. RasGAP functions
as an enhancer of the hydrolysis of GTP that is bound
to Ras-GTPases. Proteins having a RasGAP domain include
p120GAP, IQGAP, Rab5-activating protein 6, and
Neurofibromin, among others. Although the Rho (Ras
homolog) GTPases are most closely related to members of
the Ras family, RhoGAP and RasGAP exhibit no similarity
at their amino acid sequence level. RasGTPases function
as molecular switches in a large number of signaling
pathways. They are in the on state when bound to GTP,
and in the off state when bound to GDP. The RasGAP
domain speeds up the hydrolysis of GTP in Ras-like
proteins acting as a negative regulator.
Length = 256
Score = 27.1 bits (60), Expect = 3.2
Identities = 12/72 (16%), Positives = 25/72 (34%), Gaps = 8/72 (11%)
Query: 6 EKAIQNVILSNQFHIVESLTTAMTKQQTE--------IFYSEHKDKFFYNRLVTQMISGP 57
+ + ++ + ++ L+ + + E IF S F LV +
Sbjct: 3 YRLLSLLLTESPLALLRELSQVLPVKDKEEVATALLRIFESRGLALEFLRYLVRSEVKNT 62
Query: 58 SEINILARENAI 69
N L R N++
Sbjct: 63 KNPNTLFRGNSL 74
>gnl|CDD|223219 COG0141, HisD, Histidinol dehydrogenase [Amino acid transport and
metabolism].
Length = 425
Score = 26.4 bits (59), Expect = 4.4
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 53 MISGPSEINILARENAITKW 72
MI+GPSE+ ++A E A +
Sbjct: 225 MIAGPSEVLVIADETANPDF 244
>gnl|CDD|215741 pfam00135, COesterase, Carboxylesterase family.
Length = 510
Score = 26.5 bits (59), Expect = 4.6
Identities = 7/33 (21%), Positives = 12/33 (36%)
Query: 77 GPTKVYIARFSHPYSIRGMYGISDTRNAAHGSE 109
+ VY+ RF + S +HG +
Sbjct: 400 AGSPVYLYRFDYRSSGSINKLWPPWMGVSHGDD 432
>gnl|CDD|119329 cd06572, Histidinol_dh, Histidinol dehydrogenase, HisD, E.C
1.1.1.23. Histidinol dehydrogenase catalyzes the last
two steps in the L-histidine biosynthesis pathway, which
is conserved in bacteria, archaea, fungi, and plants.
These last two steps are (i) the NAD-dependent oxidation
of L-histidinol to L-histidinaldehyde, and (ii) the
NAD-dependent oxidation of L-histidinaldehyde to
L-histidine. In most fungi and in the unicellular
choanoflagellate Monosiga bevicollis, the HisD domain is
fused with units that catalyze the second and third
biosynthesis steps in this same pathway.
Length = 390
Score = 26.3 bits (59), Expect = 4.7
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 53 MISGPSEINILARENA 68
M +GPSE+ ++A E A
Sbjct: 202 MPAGPSEVLVIADETA 217
>gnl|CDD|129386 TIGR00285, TIGR00285, DNA-binding protein Alba. Alba has been
shown to bind DNA and affect DNA supercoiling in a
temperature dependent manner. It is regulated by
acetylation (alba = acetylation lowers binding
affinity) by the Sir2 protein. Alba is proposed to play
a role in establishment or maintenace of chromatin
architecture and thereby in transcription repression.
This protein appears so far only in the Archaea, but
may be universal there. There is a single member in
three of the first four completed archaeal genomes, and
a second copy in A. fulgidus. In Sulfolobus shibatae
there is a tandem second copy that is poorly conserved
and scores below the trusted cutoff; all other members
of the family are conserved at greater than 50 %
pairwise identity [DNA metabolism,
Chromosome-associated proteins].
Length = 87
Score = 25.2 bits (55), Expect = 5.4
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 50 VTQMISGPSEINILARENAITK 71
+TQ+ SG E+ I AR AI++
Sbjct: 19 LTQLNSGADEVIIKARGRAISR 40
>gnl|CDD|219338 pfam07221, GlcNAc_2-epim, N-acylglucosamine 2-epimerase (GlcNAc
2-epimerase). This family contains a number of
eukaryotic and bacterial N-acylglucosamine 2-epimerase
(GlcNAc 2-epimerase) enzymes (EC:5.3.1.8) approximately
500 residues long. This converts N-acyl-D-glucosamine to
N-acyl-D-mannosamine.
Length = 346
Score = 26.2 bits (58), Expect = 5.8
Identities = 8/36 (22%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 84 ARFSHPYSIRGMYGISDTRNAA-HGSEWLRDYNHEP 118
AR + +++ + G +AA HG +L +
Sbjct: 24 ARQVYCFAMAALLGWPGWLDAADHGLAYLAGVGRDA 59
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.133 0.397
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,493,897
Number of extensions: 554854
Number of successful extensions: 476
Number of sequences better than 10.0: 1
Number of HSP's gapped: 463
Number of HSP's successfully gapped: 41
Length of query: 129
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 43
Effective length of database: 7,123,158
Effective search space: 306295794
Effective search space used: 306295794
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.0 bits)